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    LINC03030 long intergenic non-protein coding RNA 3030 [ Homo sapiens (human) ]

    Gene ID: 646029, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC03030provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 3030provided by HGNC
    Primary source
    HGNC:HGNC:56171
    See related
    AllianceGenome:HGNC:56171
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Biased expression in ovary (RPKM 23.7), testis (RPKM 6.8) and 1 other tissue See more
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    Genomic context

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    See LINC03030 in Genome Data Viewer
    Location:
    11q14.1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (77571089..77575662)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (77504139..77508712)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (77282134..77286707)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902722 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5307 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:77270938-77272137 Neighboring gene RNA, U7 small nuclear 59 pseudogene Neighboring gene MPRA-validated peak1361 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3800 Neighboring gene MPRA-validated peak1362 silencer Neighboring gene aquaporin 11 Neighboring gene NANOG hESC enhancer GRCh37_chr11:77316282-77316821 Neighboring gene chloride nucleotide-sensitive channel 1A Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:77348567-77349086

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Long noncoding RNA LOC646029 functions as a ceRNA to suppress ovarian cancer progression through the miR-627-3p/SPRED1 axis. Zhao P, et al. Front Med, 2023 Oct. PMID 37434064
    2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Long noncoding RNA LOC646029 functions as a ceRNA to suppress ovarian cancer progression through the miR-627-3p/SPRED1 axis.
      Title: Long noncoding RNA LOC646029 functions as a ceRNA to suppress ovarian cancer progression through the miR-627-3p/SPRED1 axis.
    Submit: New GeneRIF Correction

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    General gene information

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    Clone Names

    • FLJ38894

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    RNA

    1. NR_130930.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK096213, AP002789, DB028980, DB052548

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      77571089..77575662
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      77504139..77508712
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001039908.1: Suppressed sequence

      Description
      NM_001039908.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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